TopHat 2.0.11

TopHat is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to mammalian-sized genomes using the ultra high-throughput short read aligner Bowtie, and then analyzes the mapping results to identify splice junctions between exons.

Module file

The module file can be found in this location:

 /cm/shared/modulefiles/SHARED/

<source lang='tcl'>

1. %Module1.0#######################################################################
   1. tophat 2.0.11 modulefile

proc ModulesHelp { } {

       puts stderr "\tAdds tophat 2.0.11 to your environment"

}

module load bowtie/2-2.2.1

module-whatis "Adds tophat 2.0.11 to your environment"

set tophat_2011_root /cm/shared/apps/SHARED/tophat/tophat-2.0.11.Linux_x86_64/

prepend-path PATH $tophat_2011_root

</source>

Installation details

Downloaded as pre-compiled binaries on 15-03-2014:

  http://tophat.cbcb.umd.edu/downloads/tophat-2.0.11.Linux_x86_64.tar.gz

See also

• Globally installed software
• ABGC specific modules

External links

• TopHat home page